Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008111.1 Hibiscus syriacus cultivar Beakdansim tig00110647_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1666726
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 64 characters in sequence are not A, C, G, or T
File 5 of 9
Found at i:891142 original size:36 final size:36
Alignment explanation
Indices: 891036--891160 Score: 187
Period size: 37 Copynumber: 3.4 Consensus size: 36
891026 TTCGACCTTC
891036 GAAGCAAATCAATCTTAAGCCTTCACGAAAGAGTAGT
1 GAAGCAAATCAATC-TAAGCCTTCACGAAAGAGTAGT
* **
891073 GAAGCAAATCAATATTAAGCCTTCACGGTAGAGTAGT
1 GAAGCAAATCAAT-CTAAGCCTTCACGAAAGAGTAGT
* *
891110 GAAGTAAATCAATCTAAGCCTTCACAAAAGAGTAGT
1 GAAGCAAATCAATCTAAGCCTTCACGAAAGAGTAGT
891146 GAAGCAAATCAATCT
1 GAAGCAAATCAATCT
891161 CGCATATGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
36 33 0.42
37 45 0.58
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (36 bp):
GAAGCAAATCAATCTAAGCCTTCACGAAAGAGTAGT
Found at i:891258 original size:55 final size:54
Alignment explanation
Indices: 891203--891899 Score: 665
Period size: 55 Copynumber: 12.7 Consensus size: 54
891193 CAAACTCATC
** *
891203 TTCTGAAGATCTTTTGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAAACCCATCT
1 TTCTGAAGAT-TTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCAT-T
* * *
891259 TTC-AAAGATTTTCAAGTCCTATACTCCCTGAAAGAAAAGGGAGCGGACCCATT
1 TTCTGAAGATTTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATT
* * *
891312 TTCTGAAGATTTTTCAAGTCCTATATTCCCTGAAAGAAGAGGGAGCGGGCCCATT
1 TTCTGAAGA-TTTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATT
** * * *
891367 TT-TCGAAGATATTTTGATTCATATACTCCCTGAAAGAAGAGGGAG-TGAACCCCATT
1 TTCT-GAAGAT-TTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAG-A-CCCATT
* * * * *
891423 TTCTGAAGATTGTTCAAGTCCTATGCTCCCTGAAAGAAGAGTGAACGGACCCGTT
1 TTCTGAAGATT-TTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATT
* *
891478 TTCTGAAGATTTTTCAAGTCCTATACTCCCTAAAAGAAGAGGGAGCAAACCCATT
1 TTCTGAAGA-TTTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATT
* * * * * *
891533 TTCCGAAGATGTTTCGAGTCCTATAATCCCCGAAAGAAGAGTGAGCATACCCATT
1 TTCTGAAGAT-TTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATT
* * * *
891588 TTCTGAAGATTATTCAAGTTCTATACTCCTTGAAAGAAGAGGGAGCATACTCATT
1 TTCTGAAGATT-TTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATT
* * * * * *
891643 TTTTGAAGATATTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAACGGACTCGTT
1 TTCTGAAGAT-TTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATT
* **
891698 TT-TCGAAGATTGTTCAAGTCCTATACTGCCTGAAAGAAGAGGGAGTGGACCCA-T
1 TTCT-GAAGATT-TTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATT
* ** * * * *
891752 TACCAAAGATTTTTCGAGTCCTATACTCCCTAAAAGAAGAAGGAGCAG-GCCAGTT
1 TTCTGAAGA-TTTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCA-TT
* * * * *
891807 TTCTGAATATTTTCAAGTCTTATACTCCCT-AAATAAAGAGGGAGCAGACCCGTC
1 TTCTGAAGATTTTCAAGTCCTATACTCCCTGAAA-GAAGAGGGAGCAGACCCATT
* * * *
891861 ATCTGAAGATTTTTCGA-TCTTCT-CTCCCTGAAAGAAGAG
1 TTCTGAAGA-TTTTCAAGTCCTATACTCCCTGAAAGAAGAG
891900 TGGAATGGAC
Statistics
Matches: 530, Mismatches: 88, Indels: 49
0.79 0.13 0.07
Matches are distributed among these distances:
53 21 0.04
54 131 0.25
55 329 0.62
56 47 0.09
57 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (54 bp):
TTCTGAAGATTTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATT
Found at i:892249 original size:24 final size:26
Alignment explanation
Indices: 892207--892256 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
892197 ATAAAAAAGG
*
892207 GTTTTGAAAAATCATATAT-TATATA
1 GTTTTGAAAAATAATATATATATATA
892232 GTTTTG-AAAATAATATATATATATA
1 GTTTTGAAAAATAATATATATATATA
892257 TATATAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (26 bp):
GTTTTGAAAAATAATATATATATATA
Found at i:892282 original size:70 final size:73
Alignment explanation
Indices: 892199--892372 Score: 277
Period size: 70 Copynumber: 2.4 Consensus size: 73
892189 AAAATAATAT
892199 AAAAAAGGGTTTTGAAAAATCA-TATATTATATAGTTTTG-AA-AATA-ATATATATATATATAT
1 AAAAAAGGGTTTTGAAAAAT-AGTATATTATATAGTTTTGAAATAATATATATATATATATATAT
*
892260 ATAGTTTTA
65 ATAGTTGTA
892269 AAAAAAGGGTTTTGAAAAATAGTATATTATATAGTTTTGAAAATAATATATATATATATATATAT
1 AAAAAAGGGTTTTGAAAAATAGTATATTATATAGTTTTG-AAATAATATATATATATATATATAT
*
892334 ATAGTTGTG
65 ATAGTTGTA
892343 AAAAAA-GGTTTTGAAAAATAGTATATTATA
1 AAAAAAGGGTTTTGAAAAATAGTATATTATA
892373 ATAATTAGTA
Statistics
Matches: 97, Mismatches: 2, Indels: 7
0.92 0.02 0.07
Matches are distributed among these distances:
69 1 0.01
70 37 0.38
72 2 0.02
73 28 0.29
74 29 0.30
ACGTcount: A:0.48, C:0.01, G:0.12, T:0.40
Consensus pattern (73 bp):
AAAAAAGGGTTTTGAAAAATAGTATATTATATAGTTTTGAAATAATATATATATATATATATATA
TAGTTGTA
Found at i:892318 original size:24 final size:26
Alignment explanation
Indices: 892277--892326 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
892267 TAAAAAAAGG
*
892277 GTTTTGAAAAATAGTATAT-TATATA
1 GTTTTGAAAAATAATATATATATATA
892302 GTTTTG-AAAATAATATATATATATA
1 GTTTTGAAAAATAATATATATATATA
892327 TATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (26 bp):
GTTTTGAAAAATAATATATATATATA
Found at i:892393 original size:73 final size:74
Alignment explanation
Indices: 892199--892404 Score: 257
Period size: 73 Copynumber: 2.9 Consensus size: 74
892189 AAAATAATAT
* *
892199 AAAAAAGGGTTTTGAAAAATCA-TATATTATATAGTTTTG--AA-AATA-ATATATATATATATA
1 AAAAAAGGGTTTTGAAAAAT-AGTATATTATATAGATTAGAAAATAATATATATATATATATATA
*
892259 TATAGTTTTA
65 TATAGTTGTA
* *
892269 AAAAAAGGGTTTTGAAAAATAGTATATTATATAGTTTTGAAAATAATATATATATATATATATAT
1 AAAAAAGGGTTTTGAAAAATAGTATATTATATAGATTAGAAAATAATATATATATATATATATAT
*
892334 ATAGTTGTG
66 ATAGTTGTA
* *
892343 AAAAAA-GGTTTTGAAAAATAGTATATTATAATA-ATTAGTATAT-ATCATATATATATATATAT
1 AAAAAAGGGTTTTGAAAAATAGTATATTAT-ATAGATTAGAAAATAAT-ATATATATATATATAT
892405 TAATTTAATT
Statistics
Matches: 123, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
69 1 0.01
70 37 0.30
72 4 0.03
73 49 0.40
74 32 0.26
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.41
Consensus pattern (74 bp):
AAAAAAGGGTTTTGAAAAATAGTATATTATATAGATTAGAAAATAATATATATATATATATATAT
ATAGTTGTA
Found at i:900465 original size:20 final size:20
Alignment explanation
Indices: 900436--900528 Score: 159
Period size: 20 Copynumber: 4.7 Consensus size: 20
900426 CATATGAAAT
*
900436 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTCTGTA
*
900456 TGTCCTGAAGGACCTCTGTA
1 TGTCCCGAAGGACCTCTGTA
*
900476 TGTCCCGAAAGACCTCTGTA
1 TGTCCCGAAGGACCTCTGTA
900496 TGTCCCGAAGGACCTCTGTA
1 TGTCCCGAAGGACCTCTGTA
900516 TGTCCCGAAGGAC
1 TGTCCCGAAGGAC
900529 ATCGTAGACC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (20 bp):
TGTCCCGAAGGACCTCTGTA
Found at i:901257 original size:20 final size:21
Alignment explanation
Indices: 901215--901257 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
901205 CTATAACTCC
*
901215 TATATTATATTTTCTATTAAA
1 TATATTATATCTTCTATTAAA
901236 TATA-TATATCTTC-ATTATAA
1 TATATTATATCTTCTATTA-AA
901256 TA
1 TA
901258 CTTATCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATTATATCTTCTATTAAA
Found at i:902528 original size:23 final size:23
Alignment explanation
Indices: 902502--902573 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
902492 GCTCGTAAGC
902502 TTATTTTACCAATATACTTACCA
1 TTATTTTACCAATATACTTACCA
*
902525 TTA--TTA-C-ATA-AGCTCGTAAGC-
1 TTATTTTACCAATATA-CT--T-ACCA
902546 TTATTTTACCAATATACTTACCA
1 TTATTTTACCAATATACTTACCA
902569 TTATT
1 TTATT
902574 CCATAAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 20
0.63 0.03 0.34
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 1 0.03
21 7 0.19
22 4 0.11
23 12 0.32
24 1 0.03
25 5 0.14
26 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.43
Consensus pattern (23 bp):
TTATTTTACCAATATACTTACCA
Found at i:902541 original size:44 final size:44
Alignment explanation
Indices: 902466--902579 Score: 192
Period size: 44 Copynumber: 2.6 Consensus size: 44
902456 CACTTCTTAT
* *
902466 CAATCTACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
*
902511 CAATATACTTACCATTATTACATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
902555 CAATATACTTACCATTATTCCATAA
1 CAATATACTTACCATTATTCCATAA
902580 ACCATATTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 52 0.80
45 13 0.20
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (44 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:902804 original size:57 final size:57
Alignment explanation
Indices: 902663--902823 Score: 232
Period size: 57 Copynumber: 2.8 Consensus size: 57
902653 TAGTGCTAAT
* * * *
902663 CCGTATGACACATAAGGTCATGTACACCATCTGTACTGGGTATCCTTAAGTACAGTT
1 CCGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTC
*
902720 CCGTATGACACATAAGGTTGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTC
1 CCGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTC
* * * **
902777 CCGTATGACACATAAGGGCGTGCCCACCATATACACTAGGTATCCTT
1 CCGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTT
902824 TAGTGTATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 93 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (57 bp):
CCGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTC
Found at i:903883 original size:20 final size:20
Alignment explanation
Indices: 903854--903926 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
903844 GCAGCCTTCG
* *
903854 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAAGA
* *
903874 TGCATAGATGCACAGCATGA
1 TGCATCGATGCACAGCAAGA
*
903894 TGCATCGATGCACAACAAGA
1 TGCATCGATGCACAGCAAGA
903914 TGCATCGATGCAC
1 TGCATCGATGCAC
903927 TAAGTGCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (20 bp):
TGCATCGATGCACAGCAAGA
Found at i:903967 original size:21 final size:21
Alignment explanation
Indices: 903943--904002 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
903933 CATTCGAAAT
903943 GGAGTGCATGGATGCACTACA
1 GGAGTGCATGGATGCACTACA
*
903964 GGAGTGCATGGATGCACTGCA
1 GGAGTGCATGGATGCACTACA
*
903985 GGAGTACATGGATGCACT
1 GGAGTGCATGGATGCACT
904003 TCGATATCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.20
Consensus pattern (21 bp):
GGAGTGCATGGATGCACTACA
Found at i:906311 original size:34 final size:32
Alignment explanation
Indices: 906245--906314 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
906235 ACCTTACAAC
* *
906245 TCCCTAGTTTTTCAGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACAGGGATAAACTAGAACCTT
* *
906277 TCCCTAGCTTTTACACGGGATAAGCTATAACCTT
1 TCCCTAG-TTTTACA-GGGATAAACTAGAACCTT
906311 TCCC
1 TCCC
906315 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 6 0.19
34 19 0.59
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACAGGGATAAACTAGAACCTT
Found at i:906712 original size:20 final size:20
Alignment explanation
Indices: 906681--906733 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
906671 GCAGCCTTCG
*
906681 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
*
906701 TGTATCGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
906721 TGCATCGATGCAC
1 TGCATCGATGCAC
906734 TAAGTGCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:906778 original size:20 final size:19
Alignment explanation
Indices: 906753--906874 Score: 64
Period size: 20 Copynumber: 5.8 Consensus size: 19
906743 TCGAAATGGA
906753 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCA-G
* *
906773 GTGCATCGATGCACTAGTGGCAA
1 GTGCATGGATGCAC---T-GCAG
*
906796 GTGCATGGATGCACTACATG
1 GTGCATGGATGCACTGCA-G
** * *
906816 GTTAATCGATGCACTAGTGGCAA
1 GTGCATGGATGCAC---T-GCAG
*
906839 GTGCATGGATGCACTACAGG
1 GTGCATGGATGCACTGCA-G
906859 AGTGCATGGATGCACT
1 -GTGCATGGATGCACT
906875 TTGACACCCT
Statistics
Matches: 76, Mismatches: 15, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
19 4 0.05
20 26 0.34
21 15 0.20
23 26 0.34
24 5 0.07
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (19 bp):
GTGCATGGATGCACTGCAG
Found at i:906801 original size:43 final size:43
Alignment explanation
Indices: 906752--906874 Score: 192
Period size: 43 Copynumber: 2.8 Consensus size: 43
906742 TTCGAAATGG
*
906752 AGTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTGGCA
1 AGTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGGCA
**
906795 AGTGCATGGATGCACTACATGGTTAATCGATGCACTAGTGGCA
1 AGTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGGCA
* *
906838 AGTGCATGGATGCACTACAGGAGTGCATGGATGCACT
1 AGTGCATGGATGCACTACATG-GTGCATCGATGCACT
906875 TTGACACCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 60 0.83
44 12 0.17
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (43 bp):
AGTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGGCA
Found at i:906806 original size:23 final size:23
Alignment explanation
Indices: 906773--906874 Score: 92
Period size: 23 Copynumber: 4.7 Consensus size: 23
906763 GCACTGCATG
*
906773 GTGCATCGATGCACTAGTGGCAA
1 GTGCATGGATGCACTAGTGGCAA
* *
906796 GTGCATGGATGCACTACATGGTTAA
1 GTGCATGGATGCACTA-GTGG-CAA
906821 -T-C---GATGCACTAGTGGCAA
1 GTGCATGGATGCACTAGTGGCAA
**
906839 GTGCATGGATGCACTACAGG--A
1 GTGCATGGATGCACTAGTGGCAA
906860 GTGCATGGATGCACT
1 GTGCATGGATGCACT
906875 TTGACACCCT
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
18 2 0.03
19 4 0.06
20 10 0.15
21 16 0.25
23 27 0.42
24 4 0.06
25 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (23 bp):
GTGCATGGATGCACTAGTGGCAA
Found at i:924771 original size:81 final size:81
Alignment explanation
Indices: 924631--924788 Score: 262
Period size: 81 Copynumber: 2.0 Consensus size: 81
924621 GTCTCTTGCA
* * * *
924631 CAACTGGCTCGGTAGCTTTCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTG
1 CAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTG
924696 CGAACCATTCTTGGTG
66 CGAACCATTCTTGGTG
* *
924712 CAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTTGCTCCGCCATTTCGTGTG
1 CAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTG
924777 CGAACCATTCTT
66 CGAACCATTCTT
924789 TGTAACTCGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.16, C:0.30, G:0.22, T:0.32
Consensus pattern (81 bp):
CAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTG
CGAACCATTCTTGGTG
Found at i:924963 original size:55 final size:54
Alignment explanation
Indices: 924904--925204 Score: 309
Period size: 55 Copynumber: 5.5 Consensus size: 54
924894 TAAAATTAAC
*
924904 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAA-T
* **
924959 GATTGAGCACCTCTGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAG----CCAAAAT
* * ** * * * *
925017 GACTGAGTACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
*
925071 GATTGAGCACCTCTGTGCTTCAATCGAG-GACTGACACCTCTGTGCAGCCAACTAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAG-CTGACACCTCTGTGCAGCCAA-AAT
* * * * * ****
925126 GACTGAGCACCTCTGTGCTTCAATCTAAATTCTGGCACCTCTGTGCA-TTGGAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGA-GCTGACACCTCTGTGCAGCCAAAAT
*
925180 GATTGAGCACCTCTGTGCTACAATC
1 GATTGAGCACCTCTGTGCTTCAATC
925205 TAAAATCAAG
Statistics
Matches: 204, Mismatches: 34, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
53 1 0.00
54 71 0.35
55 72 0.35
56 15 0.07
58 41 0.20
59 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (54 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
Found at i:925002 original size:27 final size:28
Alignment explanation
Indices: 924907--925171 Score: 110
Period size: 27 Copynumber: 9.5 Consensus size: 28
924897 AATTAACGAT
*
924907 TGAGCACCTCTGTGCTTCAATCGAGAGC
1 TGAGCACCTCTGTGCTTCAATCGAGAAC
* ** * *
924935 TGA-CACCTCTGTG-TAGCCAAAAGTG-AT
1 TGAGCACCTCTGTGCT--TCAATCGAGAAC
924962 TGAGCACCTCTGTGCTTCAATCGAGAAC
1 TGAGCACCTCTGTGCTTCAATCGAGAAC
*** *
924990 TGA-CACCTCTGTGCAGTT-AAAAAAAATGAC
1 TGAGCACCTCTGTGC--TTCAATCGAGA--AC
* ** * *
925020 TGAGTACCTCTGTGCTTCAGCCGGGAGC
1 TGAGCACCTCTGTGCTTCAATCGAGAAC
* *
925048 TGA-CACCTCTGTG-TAGCTAA--GATG-AT
1 TGAGCACCTCTGTGCT-TC-AATCGA-GAAC
*
925074 TGAGCACCTCTGTGCTTCAATCGAGGAC
1 TGAGCACCTCTGTGCTTCAATCGAGAAC
** *
925102 TGA-CACCTCTGTGCAGCCAA-CTATG-AC
1 TGAGCACCTCTGTGC-TTCAATCGA-GAAC
*
925129 TGAGCACCTCTGTGCTTCAATCTA-AATTC
1 TGAGCACCTCTGTGCTTCAATCGAGAA--C
925158 TG-GCACCTCTGTGC
1 TGAGCACCTCTGTGC
925172 ATTGGAATGA
Statistics
Matches: 175, Mismatches: 36, Indels: 52
0.67 0.14 0.20
Matches are distributed among these distances:
26 8 0.05
27 74 0.42
28 68 0.39
29 8 0.05
30 7 0.04
31 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (28 bp):
TGAGCACCTCTGTGCTTCAATCGAGAAC
Found at i:925110 original size:112 final size:113
Alignment explanation
Indices: 924907--925148 Score: 357
Period size: 112 Copynumber: 2.2 Consensus size: 113
924897 AATTAACGAT
*
924907 TGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
924972 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAATGAC
66 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAATGAC
* * * * *
925020 TGAGTACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGA-TGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
* ** **
925084 TGTGCTTCAATCGAGGACTGACACCTCTGTGCAG---CCAACTATGAC
66 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAATGAC
925129 TGAGCACCTCTGTGCTTCAA
1 TGAGCACCTCTGTGCTTCAA
925149 TCTAAATTCT
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
109 25 0.22
112 47 0.41
113 44 0.38
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (113 bp):
TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAATGAC
Found at i:925194 original size:54 final size:53
Alignment explanation
Indices: 924904--925208 Score: 252
Period size: 54 Copynumber: 5.5 Consensus size: 53
924894 TAAAATTAAC
* * * *
924904 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCTA-AACTGACACCTCTGTGCAGCCAACA-T
* ** *
924959 GATTGAGCACCTCTGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAT
1 GATTGAGCACCTCTGTGCTTCAATCTA-AACTGACACCTCTGTGCAG----CCAACAT
* * ** ** * * * *
925017 GACTGAGTACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGAT
1 GATTGAGCACCTCTGTGCTTCAATC-TAAACTGACACCTCTGTGCAGCCAACAT
* *
925071 GATTGAGCACCTCTGTGCTTCAATCGAGGACTGACACCTCTGTGCAGCCAACTAT
1 GATTGAGCACCTCTGTGCTTCAATCTA-AACTGACACCTCTGTGCAGCCAAC-AT
* * ****
925126 GACTGAGCACCTCTGTGCTTCAATCTAAATTCTGGCACCTCTGTGCATTGGA-AT
1 GATTGAGCACCTCTGTGCTTCAATCTAAA--CTGACACCTCTGTGCAGCCAACAT
*
925180 GATTGAGCACCTCTGTGCTACAATCTAAA
1 GATTGAGCACCTCTGTGCTTCAATCTAAA
925209 ATCAAGCACC
Statistics
Matches: 207, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
53 1 0.00
54 74 0.36
55 72 0.35
56 16 0.08
58 39 0.19
59 5 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (53 bp):
GATTGAGCACCTCTGTGCTTCAATCTAAACTGACACCTCTGTGCAGCCAACAT
Found at i:925204 original size:109 final size:110
Alignment explanation
Indices: 924907--925204 Score: 332
Period size: 109 Copynumber: 2.7 Consensus size: 110
924897 AATTAACGAT
* * * * *
924907 TGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAAAGCTGACACCTCTGTGCAGCTAAGA-TGATTGAGCACCTC
924972 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAATGAC
65 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAG-T-AAAAAAATGAC
* * ** *
925020 TGAGTACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGATGATTGAGCACCTCT
1 TGAGCACCTCTGTGCTTCAACCGAAAGCTGACACCTCTGTGCAGCTAAGATGATTGAGCACCTCT
* ** **
925085 GTGCTTCAATCGAGGACTGACACCTCTGTGCAG-CCAACTATGAC
66 GTGCTTCAATCGAGAACTGACACCTCTGTGCAGTAAAAAAATGAC
* * * * **
925129 TGAGCACCTCTGTGCTTCAATCTAAATTCTGGCACCTCTGTGCA--TTGGAATGATTGAGCACCT
1 TGAGCACCTCTGTGCTTCAACCGAAA-GCTGACACCTCTGTGCAGCTAAG-ATGATTGAGCACCT
*
925192 CTGTGCTACAATC
64 CTGTGCTTCAATC
925205 TAAAATCAAG
Statistics
Matches: 160, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
108 2 0.01
109 53 0.33
110 14 0.09
112 47 0.29
113 44 0.28
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (110 bp):
TGAGCACCTCTGTGCTTCAACCGAAAGCTGACACCTCTGTGCAGCTAAGATGATTGAGCACCTCT
GTGCTTCAATCGAGAACTGACACCTCTGTGCAGTAAAAAAATGAC
Found at i:929255 original size:26 final size:28
Alignment explanation
Indices: 929220--929271 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
929210 AACAGTCATA
*
929220 AAAAGCCCAACGATA-AAACAAAAATGT
1 AAAAGCCCAAAGATACAAACAAAAATGT
*
929247 AAAAG-CCAAAGATACAAAGAAAAAT
1 AAAAGCCCAAAGATACAAACAAAAAT
929272 AAAATCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.63, C:0.15, G:0.12, T:0.10
Consensus pattern (28 bp):
AAAAGCCCAAAGATACAAACAAAAATGT
Found at i:949697 original size:12 final size:12
Alignment explanation
Indices: 949682--949710 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
949672 TTGCACGGAT
949682 ACGGATACGGGG
1 ACGGATACGGGG
949694 ACGGATACGGGG
1 ACGGATACGGGG
949706 ACGGA
1 ACGGA
949711 AAACGGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.48, T:0.07
Consensus pattern (12 bp):
ACGGATACGGGG
Found at i:949756 original size:11 final size:11
Alignment explanation
Indices: 949740--949771 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
949730 TACAGGGTAC
949740 GGGGACGGCAA
1 GGGGACGGCAA
949751 GGGGACGGCAA
1 GGGGACGGCAA
*
949762 GGGTACGGCA
1 GGGGACGGCA
949772 TATAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.19, G:0.53, T:0.03
Consensus pattern (11 bp):
GGGGACGGCAA
Found at i:951014 original size:45 final size:45
Alignment explanation
Indices: 950950--951064 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 45
950940 TTTCAACAAT
* *
950950 TGTCATCAGCTATTGTACCATCCAAATGCTTCCCTTCAGCAG-CAG
1 TGTCATCAGTTATTGTACCATCCAAATGCTTCCCTTCAG-AGAAAG
* * *
950995 TGTCATCAATTATTGTACCATCCAAATGCTTTCCTTCAGTGAAAG
1 TGTCATCAGTTATTGTACCATCCAAATGCTTCCCTTCAGAGAAAG
* *
951040 TGACATCAGTTATTGTGCCATCCAA
1 TGTCATCAGTTATTGTACCATCCAA
951065 TTGCGTTTCT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (45 bp):
TGTCATCAGTTATTGTACCATCCAAATGCTTCCCTTCAGAGAAAG
Found at i:951077 original size:45 final size:45
Alignment explanation
Indices: 950960--951078 Score: 143
Period size: 45 Copynumber: 2.6 Consensus size: 45
950950 TGTCATCAGC
* * * *
950960 TATTGTACCATCCAAATGCTTCCCTTCAG-CAGCAGTGTCATCAAT
1 TATTGTACCATCCAAATGCTTTCCTTCAGTGA-AAGTGACATCAAT
*
951005 TATTGTACCATCCAAATGCTTTCCTTCAGTGAAAGTGACATCAGT
1 TATTGTACCATCCAAATGCTTTCCTTCAGTGAAAGTGACATCAAT
* *
951050 TATTGTGCCATCCAATTGCGTTT-CTTCAG
1 TATTGTACCATCCAAATGC-TTTCCTTCAG
951079 AATTTATATC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 61 0.94
46 4 0.06
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (45 bp):
TATTGTACCATCCAAATGCTTTCCTTCAGTGAAAGTGACATCAAT
Found at i:952518 original size:62 final size:61
Alignment explanation
Indices: 952408--952534 Score: 200
Period size: 62 Copynumber: 2.1 Consensus size: 61
952398 CAGTTTTAAA
*
952408 ATGATTTGTATAGGATTGATGACGGACAAACTTGGATTATTAGTTAATCCTACGGCGGGAT
1 ATGATTTGTAGAGGATTGATGACGGACAAACTTGGATTATTAGTTAATCCTACGGCGGGAT
* * * *
952469 ATGATTTGTAGAGGATTGATGAGGGCCAAAACTTGGATTTTTAGTTAATCCTACGGTGGGAT
1 ATGATTTGTAGAGGATTGATGACGGAC-AAACTTGGATTATTAGTTAATCCTACGGCGGGAT
952531 ATGA
1 ATGA
952535 CCTAGAATGT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
61 24 0.40
62 36 0.60
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.33
Consensus pattern (61 bp):
ATGATTTGTAGAGGATTGATGACGGACAAACTTGGATTATTAGTTAATCCTACGGCGGGAT
Found at i:959158 original size:43 final size:42
Alignment explanation
Indices: 959111--959451 Score: 387
Period size: 43 Copynumber: 7.9 Consensus size: 42
959101 ACGTCGTAAT
959111 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
1 AGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* * *
959154 AGGTCGAGATTTATAGCGGCATTTTTGGAACAAACGTCGCAAA
1 AGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* * * *
959197 ATGTCGAGATCTATAGCGGCGTTTCTGGAAAAAACACCGCAAA
1 AGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* ** *
959240 AGGTCAGATCAATAATGACGTTTTTGGAACAAACGCCGCAAA
1 AGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* * * *
959282 AGGTCAATATCTATAGCGACATTTTT-GAACAAACGTCGCAAA
1 AGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* * * * *
959324 AGGTCAAATCTATAGTGGCATTTTTTTTTGATACAAACGCCGTAAA
1 AGGTCAGATCTATAGCGGC---GTTTTTGGA-ACAAACGCCGCAAA
*
959370 AGGTCAGATCTATAGTGGCGTTTTTGGAACAAACGCCGCAAA
1 AGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* *
959412 AGGTTAGATCTATAGCGGCTTTTTTGGATACAAACGCCGC
1 AGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAACGCCGC
959452 TAATTACCTT
Statistics
Matches: 254, Mismatches: 37, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
41 11 0.04
42 93 0.37
43 113 0.44
44 5 0.02
45 2 0.01
46 30 0.12
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (42 bp):
AGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
Found at i:959349 original size:85 final size:85
Alignment explanation
Indices: 959111--959451 Score: 400
Period size: 85 Copynumber: 4.0 Consensus size: 85
959101 ACGTCGTAAT
* *
959111 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCGAGATTTATAGCGGCAT
1 AGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AGATCTATAGCGGCTT
*
959176 TTTTGGA-ACAAACGTCGCAAA
64 TTTTGGATACAAACGCCGCAAA
* * * * * ** * *
959197 ATGTCGAGATCTATAGCGGCGTTTCTGGAAAAAACACCGCAAAAGGTCAGATCAATAATGACGTT
1 AGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCTTT
959262 TTTGGA-ACAAACGCCGCAAA
65 TTTGGATACAAACGCCGCAAA
* * * * * *
959282 AGGTCAATATCTATAGCGACATTTTT-GAACAAACGTCGCAAAAGGTCAAATCTATAGTGGCATT
1 AGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGC---
* *
959346 TTTTTTTGATACAAACGCCGTAAA
62 TTTTTTGGATACAAACGCCGCAAA
* *
959370 AGGTCAGATCTATAGTGGCGTTTTTGGAACAAACGCCGCAAAAGGTTAGATCTATAGCGGCTTTT
1 AGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCTTTT
959435 TTGGATACAAACGCCGC
66 TTGGATACAAACGCCGC
959452 TAATTACCTT
Statistics
Matches: 213, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
84 28 0.13
85 69 0.32
86 44 0.21
87 23 0.11
88 49 0.23
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (85 bp):
AGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCTTTT
TTGGATACAAACGCCGCAAA
Found at i:962887 original size:82 final size:82
Alignment explanation
Indices: 962679--962895 Score: 187
Period size: 82 Copynumber: 2.7 Consensus size: 82
962669 ATTTATATGA
* * **
962679 AAAAACGCCATTAATGTATGTGATT-TTGTGGCGTTTTTATA-ACAAACGCCACTATTGTACAAG
1 AAAAACGCCATT-ATATATCTGATTATTGTGGCGTTTTTATATA-AAACGCCACTACAGTACAAG
* * *
962742 TCTATAGTGGCGTTTTTCC
64 TCTATAGCGGCATTTTTAC
* * * * * *
962761 AAAAGCGCCAGTA-ATGCATGC-GTTTATAGCGGCGTTTTTA-ATAAAACGCCAGTACAGTACAA
1 AAAAACGCCATTATAT--AT-CTGATTATTGTGGCGTTTTTATATAAAACGCCACTACAGTACAA
*
962823 GAT-TTTAGCGGCATTTTTAC
63 G-TCTATAGCGGCATTTTTAC
* *
962843 AAAAACGCCATTATATATCTGGTTATTGTGGCGTTTTTATAT-AAACGTCACTA
1 AAAAACGCCATTATATATCTGATTATTGTGGCGTTTTTATATAAAACGCCACTA
962896 AAATACTTGT
Statistics
Matches: 105, Mismatches: 21, Indels: 19
0.72 0.14 0.13
Matches are distributed among these distances:
80 2 0.02
81 28 0.27
82 59 0.56
83 16 0.15
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (82 bp):
AAAAACGCCATTATATATCTGATTATTGTGGCGTTTTTATATAAAACGCCACTACAGTACAAGTC
TATAGCGGCATTTTTAC
Found at i:965950 original size:23 final size:23
Alignment explanation
Indices: 965924--965970 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
965914 ACTACGGTGT
*
965924 AATTCTACGCGGCACTTCAGTGC
1 AATTCTAAGCGGCACTTCAGTGC
* *
965947 AATTCTAAGTGGCACTTCGGTGC
1 AATTCTAAGCGGCACTTCAGTGC
965970 A
1 A
965971 TTTATACGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (23 bp):
AATTCTAAGCGGCACTTCAGTGC
Found at i:967314 original size:154 final size:155
Alignment explanation
Indices: 967034--967342 Score: 611
Period size: 154 Copynumber: 2.0 Consensus size: 155
967024 GAACGTCACC
967034 ATGAGGATGTCCAGTGATCAGTTGACTTGGTCTTTGTTCTTAGATGAATTTAAAAACAAGTATAT
1 ATGAGGATGTCCAGTGATCAGTTGACTTGGTCTTTGTTCTTAGATGAATTTAAAAACAAGTATAT
967099 TGGAGATCAATTTATTCGACAGATGAAGCAGGAGTTTATGAACTTGAAAGTGCCTAATGAAAAAG
66 TGGAGATCAATTTATTCGACAGATGAAGCAGGAGTTTATGAACTTGAAAGTGCCTAATGAAAAAG
967164 AGGCTTGTGAATGG-TTGTGGAGGG
131 AGGCTTGTGAATGGTTTGTGGAGGG
967188 ATGAGGATGTCCAGTGATCAGTTGACTTGGTCTTTGTTCTTAGATGAATTTAAAAACAAGTATAT
1 ATGAGGATGTCCAGTGATCAGTTGACTTGGTCTTTGTTCTTAGATGAATTTAAAAACAAGTATAT
967253 TGGAGATCAATTTATTCGACAGATGAAGCAGGAGTTTATGAACTTGAAAGTGCCTAATGAAAAAG
66 TGGAGATCAATTTATTCGACAGATGAAGCAGGAGTTTATGAACTTGAAAGTGCCTAATGAAAAAG
967318 AGGCTTGTGAATGGTTTGTGGAGGG
131 AGGCTTGTGAATGGTTTGTGGAGGG
967343 CTTACGCCCT
Statistics
Matches: 154, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 144 0.94
155 10 0.06
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (155 bp):
ATGAGGATGTCCAGTGATCAGTTGACTTGGTCTTTGTTCTTAGATGAATTTAAAAACAAGTATAT
TGGAGATCAATTTATTCGACAGATGAAGCAGGAGTTTATGAACTTGAAAGTGCCTAATGAAAAAG
AGGCTTGTGAATGGTTTGTGGAGGG
Found at i:970898 original size:45 final size:46
Alignment explanation
Indices: 970810--970899 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 46
970800 TTGAAAAAGT
* * *
970810 TGAGTGCATCGATGCATGGTCTTTTGCATCGATGCATCAAATGCAC
1 TGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCAC
*
970856 TGAGTGCATCGATGCATGGT-ATGTGCATCGATGTATAAAATGCA
1 TGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
970900 TTCGATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 20 0.50
46 20 0.50
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (46 bp):
TGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCAC
Found at i:973552 original size:18 final size:18
Alignment explanation
Indices: 973525--973569 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
973515 AAATTATGTT
*
973525 GATTTTGAGCAAAAGGAG
1 GATTTAGAGCAAAAGGAG
973543 GATTTAGAGCAAAAGGAG
1 GATTTAGAGCAAAAGGAG
973561 GATTTAGAG
1 GATTTAGAG
973570 AGTGAGAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.33, T:0.22
Consensus pattern (18 bp):
GATTTAGAGCAAAAGGAG
Found at i:979109 original size:46 final size:45
Alignment explanation
Indices: 979047--979137 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
979037 TTAAAAAAGC
* * *
979047 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGCGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
*
979093 CTGAGCGCATCGATGCATGGTATGTGTATCGATGCATAAAATGCA
1 CTGAGCGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCA
979138 TTCGATGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (45 bp):
CTGAGCGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCA
Found at i:979182 original size:20 final size:20
Alignment explanation
Indices: 979157--979194 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
979147 TGAAAAATTA
979157 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
979177 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
979195 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:981428 original size:22 final size:22
Alignment explanation
Indices: 981375--981445 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
981365 CACCACAGCT
*
981375 CGTATAAATGCACCGAAGTGCCC
1 CGTATAATTGCACCGAAGTG-CC
*
981398 CGTAGAATTGCACCGAAGTGCC
1 CGTATAATTGCACCGAAGTGCC
*
981420 CGTATAATTGCACCGTAGTGCC
1 CGTATAATTGCACCGAAGTGCC
981442 CGTA
1 CGTA
981446 GAAATGATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 26 0.59
23 18 0.41
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (22 bp):
CGTATAATTGCACCGAAGTGCC
Found at i:982983 original size:21 final size:20
Alignment explanation
Indices: 982953--982996 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
982943 TCTTGTTCGT
* *
982953 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
982973 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
982994 TTG
1 TTG
982997 CCCAAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:984402 original size:59 final size:57
Alignment explanation
Indices: 984310--984427 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 57
984300 GGTTCCATGC
984310 AAATACTTATCTCAGTTTCTACATCATAGTTATCCGCTCAGAATATACAATCATATTCA
1 AAATACTTATCTCAGTTTCTACATCATAGTTATCCGCTCAG-A-ATACAATCATATTCA
984369 AAATACTTATCTCAGTTTCTACATCATAGTTATCCGCTCAGAATACAATCATATTCA
1 AAATACTTATCTCAGTTTCTACATCATAGTTATCCGCTCAGAATACAATCATATTCA
984426 AA
1 AA
984428 TTCACATCAT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
57 17 0.29
58 1 0.02
59 41 0.69
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (57 bp):
AAATACTTATCTCAGTTTCTACATCATAGTTATCCGCTCAGAATACAATCATATTCA
Found at i:986155 original size:22 final size:22
Alignment explanation
Indices: 986114--986180 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
986104 CTCGTATAAA
986114 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
986137 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
986159 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
986181 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:987896 original size:20 final size:21
Alignment explanation
Indices: 987856--987899 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
987846 TCTTGTTCGT
*
987856 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
987877 TTGAATGGGTA-CGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
987897 TTG
1 TTG
987900 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:989425 original size:64 final size:63
Alignment explanation
Indices: 989355--989473 Score: 148
Period size: 64 Copynumber: 1.9 Consensus size: 63
989345 TTGTTCAAGG
* *
989355 TGTATCGATGAACATGAAGTACATAGATGCACTAATTTAAAATAAAAACATCGAATGCCATCAT
1 TGTATCGATGAACAAGAAGTACATAGATGCACCAATTT-AAATAAAAACATCGAATGCCATCAT
* * * * ** *
989419 TGTATCGATGCACAAGTAGTGCATCGATGCACCCCTTTAAATACAAACATCGAAT
1 TGTATCGATGAACAAGAAGTACATAGATGCACCAATTTAAATAAAAACATCGAAT
989474 ATGATTTTTG
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
63 16 0.35
64 30 0.65
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (63 bp):
TGTATCGATGAACAAGAAGTACATAGATGCACCAATTTAAATAAAAACATCGAATGCCATCAT
Found at i:990204 original size:23 final size:23
Alignment explanation
Indices: 990145--990205 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
990135 ACATCTTATA
*
990145 TGGCACTACGGTGCAATTCTACG
1 TGGCATTACGGTGCAATTCTACG
* * *
990168 CGACACTT-CAGTGCAATTCTACG
1 TGGCA-TTACGGTGCAATTCTACG
990191 TGGCATTACGGTGCA
1 TGGCATTACGGTGCA
990206 TTTATACAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 2 0.07
23 26 0.90
24 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCATTACGGTGCAATTCTACG
Found at i:996158 original size:19 final size:19
Alignment explanation
Indices: 996136--996181 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
996126 CAAAAAAATT
996136 AAAAAATAATAAAAAAAG-G
1 AAAAAATAA-AAAAAAAGAG
**
996155 -AAAAATAAAAAATGAGAG
1 AAAAAATAAAAAAAAAGAG
996173 AAAAAATAA
1 AAAAAATAA
996182 GTGCTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.26
18 9 0.39
19 8 0.35
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAAAATAAAAAAAAAGAG
Found at i:996176 original size:25 final size:26
Alignment explanation
Indices: 996129--996178 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
996119 AGAAGCACAA
*
996129 AAAAATTAAAAAATAATAAAAAAAGG
1 AAAAATTAAAAAATAAGAAAAAAAGG
*
996155 AAAAA-TAAAAAATGAGAGAAAAAA
1 AAAAATTAAAAAATAAGA-AAAAAA
996179 TAAGTGCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (26 bp):
AAAAATTAAAAAATAAGAAAAAAAGG
Found at i:997041 original size:13 final size:13
Alignment explanation
Indices: 997023--997055 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
997013 TATCTCCATC
*
997023 TTTCTTTCTTTAT
1 TTTCTTTCATTAT
997036 TTTCTTTCATTAT
1 TTTCTTTCATTAT
997049 TTT-TTTC
1 TTTCTTTC
997056 CACAATGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCATTAT
Found at i:999303 original size:180 final size:181
Alignment explanation
Indices: 998970--999441 Score: 678
Period size: 181 Copynumber: 2.6 Consensus size: 181
998960 GATCCAAATT
* * * * **
998970 AAAAATGTTTCGATCTAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGA-TAAACCGGTATCAAAATGATA
* * * * * *
999035 AAATCGGTAAAGCGCTACCGGATACATTTAAAGTG-TCAGTACTTTAATATAAGGATCGACACTT
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTTGA-TACTTTAATATAAGGATCGACACTT
* *
999099 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
129 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
999152 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAACCGGTATCAAAATGATAA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAACCGGTATCAAAATGATAA
* * * *
999217 AACCAGTAAAACGTTACCGAATATATTGAAAGTGTTGATACTTT-ATATAAGGATCGACACTTTG
66 AACCGGTAAAACGATACCGGATATATTGAAAGTGTTGATACTTTAATATAAGGATCGACACTTCG
** *
999281 TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
999332 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGAT-AAACCGGTATCAAAATGATA
*
999397 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTTGATACTTT
999442 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
180 106 0.41
181 113 0.43
182 41 0.16
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAACCGGTATCAAAATGATAA
AACCGGTAAAACGATACCGGATATATTGAAAGTGTTGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:999385 original size:20 final size:19
Alignment explanation
Indices: 999362--999408 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
999352 CGATATAACA
999362 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
999382 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
999402 GGTAAAA
1 GGTAAAA
999409 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:999413 original size:17 final size:19
Alignment explanation
Indices: 999373--999413 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
999363 GTAAAAATAT
*
999373 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
999393 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
999410 GATA
1 GATA
999414 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:1002993 original size:86 final size:87
Alignment explanation
Indices: 1002848--1003023 Score: 345
Period size: 86 Copynumber: 2.0 Consensus size: 87
1002838 AATCGGTCCA
1002848 ATCGGTCGGAAGAACCGGACGACGTCATAATTATTTAAAAAATTCAATAAAAATACCAAAAATAT
1 ATCGGTCGGAAGAACCGGACGACGTCATAATTATTTAAAAAATTCAATAAAAATACCAAAAATAT
1002913 TTAATAAAAAATA-TTTTTTAT
66 TTAATAAAAAATATTTTTTTAT
1002934 ATCGGTCGGAAGAACCGGACGACGTCATAATTATTTAAAAAATTCAATAAAAATACCAAAAATAT
1 ATCGGTCGGAAGAACCGGACGACGTCATAATTATTTAAAAAATTCAATAAAAATACCAAAAATAT
1002999 TTAATAAAAAATATTTTTTTAT
66 TTAATAAAAAATATTTTTTTAT
1003021 ATC
1 ATC
1003024 ACAAGTTATA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 78 0.88
87 11 0.12
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (87 bp):
ATCGGTCGGAAGAACCGGACGACGTCATAATTATTTAAAAAATTCAATAAAAATACCAAAAATAT
TTAATAAAAAATATTTTTTTAT
Found at i:1006184 original size:17 final size:17
Alignment explanation
Indices: 1006146--1006184 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1006136 AGTAAATGTT
*
1006146 TATTATTTATGTTATAA
1 TATTATTTATATTATAA
1006163 TATTATTTATTATTATAA
1 TATTATTTA-TATTATAA
1006181 -ATTA
1 TATTA
1006185 AATGTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATTTATATTATAA
Found at i:1006332 original size:17 final size:17
Alignment explanation
Indices: 1006312--1006350 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
1006302 CATATACATT
1006312 TAAT-TTATAATAATAAA
1 TAATATTATAA-AATAAA
1006329 TAATATTATAAAATAAA
1 TAATATTATAAAATAAA
1006346 TAATA
1 TAATA
1006351 AACAACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATATTATAAAATAAA
Found at i:1008347 original size:12 final size:12
Alignment explanation
Indices: 1008327--1008364 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1008317 ATTATAACTA
1008327 ATAATATTAAAT
1 ATAATATTAAAT
*
1008339 ATTATATTAAAT
1 ATAATATTAAAT
1008351 A-AATATTAAAT
1 ATAATATTAAAT
1008362 ATA
1 ATA
1008365 TTTATGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAATATTAAAT
Found at i:1012025 original size:125 final size:126
Alignment explanation
Indices: 1011457--1012057 Score: 1138
Period size: 125 Copynumber: 4.8 Consensus size: 126
1011447 CTATAATCGG
1011457 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
1011522 TCATTGCCCTA-TATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
1011582 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCATAG-A-ATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
1011645 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1011706 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1011771 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1011832 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
1011897 TCATTGCCCTATTATGTCACTCATGTCCCTC-GGGACAATAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1011957 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1012022 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
1012058 ATAACTTAAA
Statistics
Matches: 468, Mismatches: 4, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
123 15 0.03
124 107 0.23
125 182 0.39
126 164 0.35
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:1012505 original size:33 final size:34
Alignment explanation
Indices: 1012444--1012543 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
1012434 AAATTTAATG
*
1012444 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
1012478 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
1012511 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
1012544 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:1013151 original size:21 final size:21
Alignment explanation
Indices: 1013063--1013156 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
1013053 TATGGTATAA
* *
1013063 AACCCTGCGGGTTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
1013084 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
1013105 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
1013126 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
1013147 AACCCTGCGG
1 AACCCTGCGG
1013157 AGATGGCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
20 3 0.04
21 62 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.26, G:0.35, T:0.19
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:1013186 original size:21 final size:21
Alignment explanation
Indices: 1013160--1013207 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1013150 CCTGCGGAGA
*
1013160 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
1013181 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
1013202 GGGCAT
1 TGGCAT
1013208 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:1014968 original size:34 final size:31
Alignment explanation
Indices: 1014923--1015011 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
1014913 TTAATAATTC
*
1014923 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
1014957 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
1014988 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
1015012 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:1014988 original size:31 final size:33
Alignment explanation
Indices: 1014923--1015002 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 33
1014913 TTAATAATTC
* *
1014923 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
1014957 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
1014988 TATAAAAAATAATAA
1 TA-AAAAAATAATAA
1015003 CTATTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 6 0.15
32 11 0.27
33 2 0.05
34 22 0.54
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:1015783 original size:15 final size:15
Alignment explanation
Indices: 1015744--1015772 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1015734 TTTAGTTTGG
1015744 CTGAGAATGTCATTT
1 CTGAGAATGTCATTT
1015759 CTGAGAATGTCATT
1 CTGAGAATGTCATT
1015773 CTTGATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (15 bp):
CTGAGAATGTCATTT
Found at i:1019367 original size:20 final size:21
Alignment explanation
Indices: 1019336--1019393 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
1019326 AAATGATCAA
*
1019336 CAAATACGCAACGCGAA-CTC
1 CAAATTCGCAACGCGAATCTC
* * *
1019356 CAATTTCGCAACTC-AATTTC
1 CAAATTCGCAACGCGAATCTC
1019376 CAAATTCGCAACGCGAAT
1 CAAATTCGCAACGCGAAT
1019394 TTGTAAATCG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.07
20 25 0.83
21 3 0.10
ACGTcount: A:0.36, C:0.31, G:0.12, T:0.21
Consensus pattern (21 bp):
CAAATTCGCAACGCGAATCTC
Found at i:1019449 original size:40 final size:40
Alignment explanation
Indices: 1019376--1019550 Score: 153
Period size: 40 Copynumber: 4.4 Consensus size: 40
1019366 ACTCAATTTC
* * *
1019376 CAAATTCGCAACGCGAATTTGT-AAA-TCGCAACACAGAAGT
1 CAAATTCGCAACGCG-A-TAGTCAAATTCGTAACACAAAAGT
*
1019416 CAAATTCGCAACGCTATAGTCAAATTCGTAACACAAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGTAACACAAAAGT
* * **
1019456 CAAATTCGCAACGCGATAGTCAAATTCGCAACTCGAATTTGT
1 CAAATTCGCAACGCGATAGTCAAATTCGTAACAC-AA-AAGT
* ** *
1019498 -AAA-TCGCAACTCAGA-AGTCAAATTCACAACAAAAAAGT
1 CAAATTCGCAACGC-GATAGTCAAATTCGTAACACAAAAGT
*
1019536 CAAATTCACAACGCG
1 CAAATTCGCAACGCG
1019551 TAAATTTTAA
Statistics
Matches: 111, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
38 5 0.05
39 10 0.09
40 87 0.78
41 7 0.06
42 2 0.02
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (40 bp):
CAAATTCGCAACGCGATAGTCAAATTCGTAACACAAAAGT
Found at i:1019465 original size:60 final size:60
Alignment explanation
Indices: 1019401--1019550 Score: 153
Period size: 60 Copynumber: 2.5 Consensus size: 60
1019391 AATTTGTAAA
* *
1019401 TCGCAACACAGAAGTCAAATTCGCAACGC-TA-TAGTCAAATTCGTAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAATTCGCAACGCGAATTAGT-AAA-TCGCAACACAAAAGTCAAAT
* * * * *
1019461 TCGCAACGC-GATAGTCAAATTCGCAACTCGAATTTGTAAATCGCAACTCAGAAGTCAAAT
1 TCGCAACACAGA-AGTCAAATTCGCAACGCGAATTAGTAAATCGCAACACAAAAGTCAAAT
* * * *
1019521 TCACAACAAAAAAGTCAAATTCACAACGCG
1 TCGCAACACAGAAGTCAAATTCGCAACGCG
1019551 TAAATTTTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
59 2 0.03
60 63 0.86
61 5 0.07
62 3 0.04
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (60 bp):
TCGCAACACAGAAGTCAAATTCGCAACGCGAATTAGTAAATCGCAACACAAAAGTCAAAT
Found at i:1019589 original size:20 final size:20
Alignment explanation
Indices: 1019376--1019593 Score: 133
Period size: 20 Copynumber: 10.8 Consensus size: 20
1019366 ACTCAATTTC
*
1019376 CAAATTCGCAACGCGAATTTGT
1 CAAATTCGCAACGCG-A-TAGT
*
1019398 -AAA-TCGCAACACAGA-AGT
1 CAAATTCGCAACGC-GATAGT
*
1019416 CAAATTCGCAACGCTATAGT
1 CAAATTCGCAACGCGATAGT
* * * *
1019436 CAAATTCGTAACACAAAAGT
1 CAAATTCGCAACGCGATAGT
1019456 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
* *
1019476 CAAATTCGCAACTCGAATTTGT
1 CAAATTCGCAACGCG-A-TAGT
*
1019498 -AAA-TCGCAACTCAGA-AGT
1 CAAATTCGCAACGC-GATAGT
* *** *
1019516 CAAATTCACAACAAAAAAGT
1 CAAATTCGCAACGCGATAGT
* * *
1019536 CAAATTCACAACGCGTAAATTT
1 CAAATTCGCAACGCG-ATA-GT
* **
1019558 TAAATTTACAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
1019578 CAAATTCGCAACGCGA
1 CAAATTCGCAACGCGA
1019594 AACATAATAT
Statistics
Matches: 154, Mismatches: 30, Indels: 26
0.73 0.14 0.12
Matches are distributed among these distances:
18 4 0.03
19 8 0.05
20 111 0.72
21 14 0.09
22 17 0.11
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGATAGT
Found at i:1023306 original size:25 final size:25
Alignment explanation
Indices: 1023221--1023328 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
1023211 ACCGTAGTAC
* *
1023221 ATACATATAAGGTCATGCCCACCAT
1 ATACACATAAGGTCGTGCCCACCAT
1023246 AATACACATAAGGTCGTGCCCACCATT
1 -ATACACATAAGGTCGTGCCCACCA-T
1023273 ATACACATAAGGTCGTGCCCACCAT
1 ATACACATAAGGTCGTGCCCACCAT
*
1023298 ATACACATAAGGTCGTGCTCACCAT
1 ATACACATAAGGTCGTGCCCACCAT
1023323 ATACAC
1 ATACAC
1023329 TTAGTGCCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
25 31 0.40
26 46 0.59
27 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (25 bp):
ATACACATAAGGTCGTGCCCACCAT
Found at i:1026424 original size:13 final size:14
Alignment explanation
Indices: 1026400--1026430 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1026390 TTGGACTATA
1026400 ATGTGTTTGCATAG
1 ATGTGTTTGCATAG
1026414 ATGTG-TTGCATAG
1 ATGTGTTTGCATAG
1026427 ATGT
1 ATGT
1026431 CTAGGGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (14 bp):
ATGTGTTTGCATAG
Found at i:1032861 original size:17 final size:15
Alignment explanation
Indices: 1032831--1032868 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1032821 ATATATTTAC
1032831 AATTTTTCTTATATT
1 AATTTTTCTTATATT
1032846 AATTCTTTCATTATATT
1 AATT-TTTC-TTATATT
1032863 -ATTTTT
1 AATTTTT
1032869 TTTCTCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 7 0.33
17 7 0.33
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTTTTCTTATATT
Found at i:1033175 original size:65 final size:65
Alignment explanation
Indices: 1033083--1033348 Score: 357
Period size: 65 Copynumber: 4.2 Consensus size: 65
1033073 TATTCTAGTC
* *
1033083 TCAT-TGAGTGATCTTTATAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAG
1 TCATATGAGTGATTTTTATTGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAG
* *
1033147 TCATATGAGTGATTTTTACTGTATTCAATTATCACT-----T-ATGCACCACAAAAGTACATGAG
1 TCATATGAGTGATTTTTATTGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAG
* * * * * *
1033206 TCATATGAGTGATTTATATTATATACAATTATCACTCTATCTCATGCACCACAAAGATACATGAG
1 TCATATGAGTGATTTTTATTGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAG
* * *
1033271 TCATATGAGTGATTTGTATTGTATTCAATTATCACTCCACCTCATGCACCATAATGGTACATGAG
1 TCATATGAGTGATTTTTATTGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAG
*
1033336 TCATATGACTGAT
1 TCATATGAGTGAT
1033349 ATGTACTTGT
Statistics
Matches: 176, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
59 53 0.30
60 1 0.01
64 5 0.03
65 117 0.66
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.34
Consensus pattern (65 bp):
TCATATGAGTGATTTTTATTGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAG
Found at i:1033254 original size:124 final size:123
Alignment explanation
Indices: 1033083--1033306 Score: 353
Period size: 124 Copynumber: 1.8 Consensus size: 123
1033073 TATTCTAGTC
* *
1033083 TCATTGAGTGATCTTTATAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAGT
1 TCATTGAGTGATCTTTATAGTATACAATTATCACTCCACCTCATGCACCACAAAGATACATGAGT
*
1033148 CATATGAGTGATTTTTACTGTATTCAATTATCACTTATGCACCACAAAAGTACATGAG
66 CATATGAGTGATTTGTACTGTATTCAATTATCACTTATGCACCACAAAAGTACATGAG
* *
1033206 TCATATGAGTGAT-TTATATTA-TATACAATTATCACTCTATCTCATGCACCACAAAGATACATG
1 TCAT-TGAGTGATCTT-TA-TAGTATACAATTATCACTCCACCTCATGCACCACAAAGATACATG
*
1033269 AGTCATATGAGTGATTTGTATTGTATTCAATTATCACT
63 AGTCATATGAGTGATTTGTACTGTATTCAATTATCACT
1033307 CCACCTCATG
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
123 6 0.07
124 84 0.91
125 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (123 bp):
TCATTGAGTGATCTTTATAGTATACAATTATCACTCCACCTCATGCACCACAAAGATACATGAGT
CATATGAGTGATTTGTACTGTATTCAATTATCACTTATGCACCACAAAAGTACATGAG
Found at i:1034745 original size:16 final size:16
Alignment explanation
Indices: 1034724--1034764 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
1034714 ATCTAGCTTA
1034724 CAGAATCTGTTTGGAG
1 CAGAATCTGTTTGGAG
1034740 CAGAATCTGTTTGGAG
1 CAGAATCTGTTTGGAG
1034756 CAGAATCTG
1 CAGAATCTG
1034765 CTGCCCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (16 bp):
CAGAATCTGTTTGGAG
Found at i:1043630 original size:17 final size:19
Alignment explanation
Indices: 1043598--1043632 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1043588 TACTAAAGTG
1043598 TAAATTTGTGTTTTAAACT
1 TAAATTTGTGTTTTAAACT
1043617 TAAATTT-T-TTTTAAAC
1 TAAATTTGTGTTTTAAAC
1043633 AGTTTTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (19 bp):
TAAATTTGTGTTTTAAACT
Found at i:1043887 original size:65 final size:64
Alignment explanation
Indices: 1043735--1043887 Score: 191
Period size: 64 Copynumber: 2.4 Consensus size: 64
1043725 CCCCATTTCA
* * * *
1043735 AATGCATTTAGTGTACCGATGCACACACCATGCATCGATGCACTGAGGGTTTATTGAAACATCG
1 AATGCAATTAGTGTACCGATGCACACACCATGCATCGATGCACTCAGGCTTTATTAAAACATCG
* * * *
1043799 AATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCAGGCTTGT-TTAAAATATC
1 AATGCAATTAGTGTACCGATGCACACACCATGCATCGATGCACT-CAGGCTT-TATTAAAACATC
1043863 G
64 G
* *
1043864 AATGTAATTAGTGCACCGATGCAC
1 AATGCAATTAGTGTACCGATGCAC
1043888 CCCTAGTGTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 42 0.55
65 34 0.44
66 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (64 bp):
AATGCAATTAGTGTACCGATGCACACACCATGCATCGATGCACTCAGGCTTTATTAAAACATCG
Found at i:1045846 original size:21 final size:21
Alignment explanation
Indices: 1045822--1045861 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1045812 CAGACTTTAT
1045822 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
1045843 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
1045862 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:1049763 original size:23 final size:23
Alignment explanation
Indices: 1049696--1049771 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
1049686 TAGACAGTGT
*
1049696 ATCGATGCATGCCTTGAATGTGC
1 ATCGATGCATTCCTTGAATGTGC
* *
1049719 ATCGATACA-T-CATGAA-GATGC
1 ATCGATGCATTCCTTGAATG-TGC
1049740 A-CTGATGCATTCCTTGAATGTGC
1 ATC-GATGCATTCCTTGAATGTGC
1049763 ATCGATGCA
1 ATCGATGCA
1049772 CTCTGCTGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
20 2 0.05
21 14 0.33
22 1 0.02
23 23 0.55
24 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
ATCGATGCATTCCTTGAATGTGC
Found at i:1052511 original size:64 final size:65
Alignment explanation
Indices: 1052418--1052566 Score: 167
Period size: 65 Copynumber: 2.3 Consensus size: 65
1052408 ATTTCGAATG
* * * * *
1052418 CATTTAGTGTACCGATGCACACATAATGCATTGATGCACT-CAGGGTT-TATTGAAACATCAAAT
1 CATTTAGTGTACCGATGCACAAACAATGCATCGATACACTCCAGGCTTGT-TTGAAACATCAAAT
1052481 A
65 A
* * * *
1052482 CATTTTGTGTACCGATGCACAAACCATGCATCGATACACTCCAGGCTTGTTTGAAACATCGAATG
1 CATTTAGTGTACCGATGCACAAACAATGCATCGATACACTCCAGGCTTGTTTGAAACATCAAATA
* * *
1052547 TAATTAGTGCACCGATGCAC
1 CATTTAGTGTACCGATGCAC
1052567 CCCTAGTGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
64 34 0.49
65 35 0.50
66 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (65 bp):
CATTTAGTGTACCGATGCACAAACAATGCATCGATACACTCCAGGCTTGTTTGAAACATCAAATA
Found at i:1052566 original size:65 final size:64
Alignment explanation
Indices: 1052411--1052566 Score: 179
Period size: 64 Copynumber: 2.4 Consensus size: 64
1052401 AAACCCCATT
* * * * *
1052411 TCGAATGCATTTAGTGTACCGATGCACACATAATGCATTGATGCACTCAGGGTTTATTGAAACA
1 TCGAATGCATTTAGTGTACCGATGCACAAACAATGCATCGATACACTCAGGCTTTATTGAAACA
* * * *
1052475 TCAAATACATTTTGTGTACCGATGCACAAACCATGCATCGATACACTCCAGGCTTGT-TTGAAAC
1 TCGAATGCATTTAGTGTACCGATGCACAAACAATGCATCGATACACT-CAGGCTT-TATTGAAAC
1052539 A
64 A
* * *
1052540 TCGAATGTAATTAGTGCACCGATGCAC
1 TCGAATGCATTTAGTGTACCGATGCAC
1052567 CCCTAGTGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
64 39 0.52
65 35 0.47
66 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (64 bp):
TCGAATGCATTTAGTGTACCGATGCACAAACAATGCATCGATACACTCAGGCTTTATTGAAACA
Found at i:1053631 original size:19 final size:19
Alignment explanation
Indices: 1053607--1053649 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
1053597 TAATGCTAAA
1053607 ATTAGGTTATCCCACTAGT
1 ATTAGGTTATCCCACTAGT
1053626 ATTAGGTTATCCCACTAGT
1 ATTAGGTTATCCCACTAGT
*
1053645 GTTAG
1 ATTAG
1053650 AAATATGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (19 bp):
ATTAGGTTATCCCACTAGT
Found at i:1054664 original size:13 final size:13
Alignment explanation
Indices: 1054646--1054681 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
1054636 GCACTTATGA
1054646 AAGAATTGCACGT
1 AAGAATTGCACGT
1054659 AAGAATTGCACGT
1 AAGAATTGCACGT
1054672 AAGAATTGCA
1 AAGAATTGCA
1054682 ATTTCAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (13 bp):
AAGAATTGCACGT
Found at i:1058392 original size:35 final size:36
Alignment explanation
Indices: 1058345--1058415 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
1058335 AATGTTGATA
1058345 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
*
1058381 ATGCT-AAATTAGGTTATCCCACTAGTATTGGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
1058416 GACGATTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 29 0.85
36 5 0.15
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (36 bp):
ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
Found at i:1072413 original size:54 final size:54
Alignment explanation
Indices: 1072331--1072496 Score: 287
Period size: 54 Copynumber: 3.1 Consensus size: 54
1072321 CAATGATTGA
1072331 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
*
1072385 GAACATCTGAGCAGAAACTACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * **
1072439 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1072493 GAAC
1 GAAC
1072497 CTGTTATTCT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (54 bp):
GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:1072875 original size:22 final size:22
Alignment explanation
Indices: 1072849--1072927 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
1072839 ACATTTACAT
1072849 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1072871 TCTTCAAAGATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
* * *
1072893 TTTTTAAAGATGACAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1072915 TTTTCAAAGATGA
1 TCTTCAAAGATGA
1072928 AAGCTTTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1073411 original size:39 final size:35
Alignment explanation
Indices: 1073357--1073447 Score: 130
Period size: 39 Copynumber: 2.5 Consensus size: 35
1073347 TGCCAGGTCG
1073357 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTG-A-AAGAA-AA-A
*
1073396 AGTTCATAATGAGAAGAACTCATCTGAAAGAATAA
1 AGTTCATAATGAGAAGAACTCATCTGAAAGAAAAA
1073431 A-TTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
1073448 TTTGTTCAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
34 16 0.31
35 2 0.04
36 1 0.02
37 5 0.10
38 1 0.02
39 26 0.51
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.21
Consensus pattern (35 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAGAAAAA
Found at i:1073682 original size:113 final size:112
Alignment explanation
Indices: 1073395--1074248 Score: 926
Period size: 113 Copynumber: 7.6 Consensus size: 112
1073385 GAAGAAGAAG
*
1073395 AAGTTCATAATGAGAAGAACTCATCTG-A-AAGAA-TA-AA-TTCATAATGAGAAGAATTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * *
1073455 AACTTTTTGTTCAAAACCATCACTTGATGGATCAAAC-TTTCCAGAGG
66 AACCTTTTGCTCAAATCCATCATTTGATGGATC-AACTTTTCCAGAGA
*
1073502 AAGTTCATAAT--GAA-AATTCATCTGAAGAAGAAG-A-AA-TTCATAATGAGAAGAATTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
1073561 AACTTTTTGCTCAAATCCATTATTTGATGGATCAGCTTTTCTAGAGA
66 AACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGA
*
1073608 AAGTTCATAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * * * *
1073673 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGATA
65 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGA
* ** * *
1073721 GAGTTCATAATGAGAAGAACTCATCAT-CTGAAGAAGAAGAAATTCATAATGAGAAGAATTTATT
1 AAGTTCATAATGAGAAGAACTCATC-TGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
1073785 CAACCTTTTGCTCAAATCCATTATTTGATGGATCAGCTTTTCCAGAGA
65 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGA
1073833 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * * *
1073898 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAG-GTA
65 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAG-A
* *
1073946 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAG-A-AA-TTCATAATGAGAAGAATTTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTG
* * *
1074008 TTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-
63 TTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGA
* **
1074057 AAGTTCATAATGAGAAGAACTCATCT---GAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * *
1074119 AACCTTTTACAT-AATTTTATCACAGAAGCAAATAGATTAGCATCAAC-TTTCCAGAGA
66 AACCTTTTGC-TCAA----ATC-C---ATC-ATTTGA-T-GGATCAACTTTTCCAGAGA
* **
1074176 AAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1074241 CAACCTTT
65 CAACCTTT
1074249 GTTTGATTCT
Statistics
Matches: 634, Mismatches: 74, Indels: 62
0.82 0.10 0.08
Matches are distributed among these distances:
104 9 0.01
105 13 0.02
106 80 0.13
107 13 0.02
108 37 0.06
109 16 0.03
110 4 0.01
111 20 0.03
112 159 0.25
113 175 0.28
114 2 0.00
115 5 0.01
116 14 0.02
117 4 0.01
118 10 0.02
119 31 0.05
122 3 0.00
123 39 0.06
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (112 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGA
Found at i:1073817 original size:225 final size:222
Alignment explanation
Indices: 1073395--1074126 Score: 1114
Period size: 225 Copynumber: 3.3 Consensus size: 222
1073385 GAAGAAGAAG
*
1073395 AAGTTCATAATGAGAAGAACTCATCTGA-AAGAA-TA-AA-TTCATAATGAGAAGAATTTGTTCA
1 AAGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * ** * * * *
1073456 ACTTTTTGTTCAAAACCATCACTTGATGGATCAA-ACTTTCCAGA-GGAAGTTCATAAT--GAA-
66 ACCTTTTGTTTAAATTCATCATTTGATGGATTAACA-TTGCCAGATAG-AGTTCATAATGAGAAG
*
1073516 AA-T-TCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCC
129 AACTCTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACTTTTTGCTCAAATCC
*
1073579 ATTATTTGATGGATCAGCTTTTCTAGAGA
194 ATTATTTGATGGATCAGCTTTTCCAGAGA
*
1073608 AAGTTCATAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTG-AGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1073673 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAG
64 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAG
*
1073738 AACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATC
129 AACTC-TCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACTTTTTGCTCAAATC
1073803 CATTATTTGATGGATCAGCTTTTCCAGAGA
193 CATTATTTGATGGATCAGCTTTTCCAGAGA
1073833 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTG-AGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTT
*
1073898 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAG
64 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAG
*
1073963 AACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTTTTCAACTTTTTGCTCAAATC
129 AACTC-TCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACTTTTTGCTCAAATC
* *
1074028 CATCACTTGATGGATCAGCTTTTCCAGAG-
193 CATTATTTGATGGATCAGCTTTTCCAGAGA
* **
1074057 AAGTTCATAATGAGAAGAACTCATCT--GAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCA
1 AAGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1074120 ACCTTTT
66 ACCTTTT
1074127 ACATAATTTT
Statistics
Matches: 482, Mismatches: 23, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
213 26 0.05
214 1 0.00
215 2 0.00
216 3 0.01
217 1 0.00
218 2 0.00
219 69 0.14
220 40 0.08
221 6 0.01
222 2 0.00
223 1 0.00
224 26 0.05
225 303 0.63
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (222 bp):
AAGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAA
CTCTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACTTTTTGCTCAAATCCAT
TATTTGATGGATCAGCTTTTCCAGAGA
Found at i:1074241 original size:123 final size:123
Alignment explanation
Indices: 1074048--1074336 Score: 387
Period size: 123 Copynumber: 2.4 Consensus size: 123
1074038 TGGATCAGCT
1074048 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCT---GAA-GAAGAAGAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATGAGA
* *
1074108 AGAGCTTGTTCAACCTTT-TACATAATTTTATCACAGAA-GCAAATAGATTAGCATCAAC-
66 AGAGCTTGTTCAACCTTTGT--ATAATTCTATCACAGAATG-AAATAGATCAGCATCAACA
* *
1074166 TTTCCAGAGAAAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATGAGA
* * * * *
1074231 AGAGCTTGTTCAACCTTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCA
66 AGAGCTTGTTCAACCTTTGTATAATTCTATCACAGAATGAAATAGATCAGCATCAACA
* * *
1074289 TTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1074337 GAATTTGTTC
Statistics
Matches: 150, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
118 9 0.06
119 25 0.17
122 31 0.21
123 84 0.56
124 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (123 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATGAGA
AGAGCTTGTTCAACCTTTGTATAATTCTATCACAGAATGAAATAGATCAGCATCAACA
Found at i:1076891 original size:2 final size:2
Alignment explanation
Indices: 1076884--1076912 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1076874 TTCATCTCAT
1076884 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1076913 GCTTGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1076976 original size:27 final size:27
Alignment explanation
Indices: 1076941--1076993 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1076931 AATATATATA
* *
1076941 TATAATATATAGTTTTGAAAATATTTC
1 TATAATATATAATTTTGAAAACATTTC
* *
1076968 TATATTATATAATTTTTAAAACATTT
1 TATAATATATAATTTTGAAAACATTT
1076994 TTGAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (27 bp):
TATAATATATAATTTTGAAAACATTTC
Found at i:1077021 original size:37 final size:37
Alignment explanation
Indices: 1076968--1077147 Score: 211
Period size: 37 Copynumber: 4.7 Consensus size: 37
1076958 AAAATATTTC
* *
1076968 TATATTATATAATTTTTAAAACATTTTTGAAAATAAA
1 TATAATATATAGTTTTTAAAACATTTTTGAAAATAAA
*
1077005 TATAATATATAGTTTTTAAAACATTTTTGAATATATATA
1 TATAATATATAGTTTTTAAAACATTTTTGAA-A-ATAAA
** *
1077044 TATGTTGTATAGTTTTTAAAACA-TTTTGAAAATAAA
1 TATAATATATAGTTTTTAAAACATTTTTGAAAATAAA
*
1077080 TATAATATATAGTTTTTGAAAACATTTTTTTGAAAACT-TA
1 TATAATATATAGTTTTT-AAAACA--TTTTTGAAAA-TAAA
1077120 TATAATATATAGTTTTTTTAAAACATTT
1 TATAATATATAG--TTTTTAAAACATTT
1077148 GTTTTGAAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
36 18 0.15
37 36 0.29
38 8 0.07
39 27 0.22
40 22 0.18
41 7 0.06
42 5 0.04
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (37 bp):
TATAATATATAGTTTTTAAAACATTTTTGAAAATAAA
Found at i:1077122 original size:76 final size:75
Alignment explanation
Indices: 1076953--1077147 Score: 234
Period size: 76 Copynumber: 2.5 Consensus size: 75
1076943 TAATATATAG
* * * * *
1076953 TTTTGAAAATATTTCTATATTATATAATTTTTAAAACATTTTTGAAAATAAATATAATATATAGT
1 TTTTGAATATATATATATAATATATAGTTTTTAAAACA-TTTTGAAAATAAATATAATATATAGT
1077018 TTTTAAAACAT
65 TTTTAAAACAT
** *
1077029 TTTTGAATATATATATATGTTGTATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTT
1 TTTTGAATATATATATATAATATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTT
1077094 TTTGAAAACATTT
66 TTT-AAAACA--T
1077107 TTTTGAA-A-ACT-TATATAATATATAGTTTTTTTAAAACATTT
1 TTTTGAATATA-TATATATAATATATAG--TTTTTAAAACATTT
1077148 GTTTTGAAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
75 30 0.29
76 50 0.48
77 2 0.02
78 22 0.21
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (75 bp):
TTTTGAATATATATATATAATATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTT
TTTAAAACAT
Found at i:1077195 original size:31 final size:32
Alignment explanation
Indices: 1077125--1077201 Score: 95
Period size: 31 Copynumber: 2.4 Consensus size: 32
1077115 ACTTATATAA
* *
1077125 TATATAGTTTTTTTAAAACATTTGTTTTGAAAAT
1 TATATAG-TTTTTAAAAACA-TTGTTTTAAAAAT
1077159 TATATAGTTTTTAAAAACA-T-TTTTAAAATAT
1 TATATAGTTTTTAAAAACATTGTTTTAAAA-AT
1077190 TATATAGTTTTT
1 TATATAGTTTTT
1077202 TTTTAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 7 0.17
31 15 0.38
33 11 0.28
34 7 0.17
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (32 bp):
TATATAGTTTTTAAAAACATTGTTTTAAAAAT
Found at i:1077308 original size:3 final size:3
Alignment explanation
Indices: 1077300--1077348 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
1077290 AATATTTTAT
*
1077300 TTA TTA TTA TTA TTA TTTA TTA TTA TCT- TTA TTA TTA CTTA TTT TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA -TTA TTA TTA
1077347 TT
1 TT
1077349 TCTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 1 0.03
3 32 0.80
4 7 0.17
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1077317 original size:16 final size:15
Alignment explanation
Indices: 1077292--1077362 Score: 76
Period size: 16 Copynumber: 4.7 Consensus size: 15
1077282 TTTTTAAAAA
1077292 TATTTTATTTATTAT
1 TATTTTATTTATTAT
1077307 TATTATTATTTATTAT
1 TATT-TTATTTATTAT
1077323 TATCTTTA-TTATTACT
1 TAT-TTTATTTATTA-T
*
1077339 TATTTTTATTTCTT-T
1 TA-TTTTATTTATTAT
1077354 T-TTTTATTT
1 TATTTTATTT
1077363 TGTTCCAGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
13 8 0.16
15 12 0.24
16 24 0.48
17 6 0.12
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTATTTATTAT
Found at i:1077324 original size:19 final size:20
Alignment explanation
Indices: 1077295--1077348 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
1077285 TTAAAAATAT
*
1077295 TTTATTTATTATTATTATTA
1 TTTACTTATTATTATTATTA
1077315 TTTA-TTATTATCT-TTATTA
1 TTTACTTATTAT-TATTATTA
*
1077334 -TTACTTATTTTTATT
1 TTTACTTATTATTATT
1077349 TCTTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.13
19 21 0.70
20 5 0.17
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTACTTATTATTATTATTA
Found at i:1077331 original size:22 final size:22
Alignment explanation
Indices: 1077306--1077347 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1077296 TTATTTATTA
*
1077306 TTATTATTATTTATTATTATCT
1 TTATTATTACTTATTATTATCT
*
1077328 TTATTATTACTTATTTTTAT
1 TTATTATTACTTATTATTAT
1077348 TTCTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TTATTATTACTTATTATTATCT
Found at i:1078455 original size:12 final size:12
Alignment explanation
Indices: 1078432--1078466 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
1078422 TTTTTTGTGC
1078432 TATT-TTATTTT
1 TATTCTTATTTT
1078443 TATTCCTTATTTT
1 TATT-CTTATTTT
1078456 TATTCTTATTT
1 TATTCTTATTT
1078467 ATTTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.18
12 7 0.32
13 11 0.50
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTCTTATTTT
Found at i:1078593 original size:21 final size:19
Alignment explanation
Indices: 1078555--1078593 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
1078545 TTAGCTTTTT
*
1078555 CCTTTTTACTTGTTTTCAA
1 CCTTTTTACTTCTTTTCAA
1078574 CCTTTTTGACCTTCTTTTCA
1 CCTTTTT-A-CTTCTTTTCA
1078594 CTTTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 1 0.06
21 9 0.53
ACGTcount: A:0.13, C:0.26, G:0.05, T:0.56
Consensus pattern (19 bp):
CCTTTTTACTTCTTTTCAA
Found at i:1078787 original size:27 final size:29
Alignment explanation
Indices: 1078757--1078811 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
1078747 TTATTTGAAA
1078757 TTTAACATTTTTTT-ACTTT-TTTATTTC
1 TTTAACATTTTTTTGACTTTATTTATTTC
* *
1078784 TTTAACTTTTTTTTGATTTTATTTATTT
1 TTTAACATTTTTTTGACTTTATTTATTT
1078812 TAATTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 4 0.17
29 7 0.29
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTAACATTTTTTTGACTTTATTTATTTC
Found at i:1084208 original size:84 final size:84
Alignment explanation
Indices: 1083983--1085219 Score: 1360
Period size: 84 Copynumber: 14.9 Consensus size: 84
1083973 AATTTTTTCT
* * * * * *
1083983 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
1084048 CTCAGCATCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * * * *
1084068 ATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTTCCAA-CAAAGACCTTCGAGTTCGACTAAG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
1084132 CTCAGCTCAAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * *
1084151 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCAAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * * *
1084216 CTCACCTTCGAGGGTACATC
66 CTCAGC-TCCAAGGCACATC
*
1084236 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1084301 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * *
1084320 ATTTGAAGCATAGCTTAAGCCGAGAAGGGTTATCTG----CCAAATACCCTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
1084381 CTCAGCTCCAGGGTACATA
66 CTCAGCTCCAAGGCACATC
* ** * * * * *** *
1084400 ATTTACAATATAACTCAAGGCTAGAAGTGTTATCTG-TGGCCAAAAGACCTTCGAGTTCGACTAT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
* *
1084464 GCTCAGCTCCAAGACATATC
65 GCTCAGCTCCAAGGCACATC
* * * *
1084484 ATTTGCAGTATAACTTAAGTCGATAAGGTTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1084549 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * *
1084568 ATTTGTAACATAGCTTAAGTCGAGAAGGGCTATCTGACAACCAAAGACCTTTGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
1084633 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * ** *
1084653 ATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTACC-AGTAAAGACC-T----TTCGATTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1084712 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * * *
1084731 ATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1084796 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * *
1084815 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAGGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
1084880 CTCAGCTCTAAGGCATATC
66 CTCAGCTCCAAGGCACATC
*
1084899 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1084964 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * *
1084983 ATTTGTAACATAGA-TTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATA-ACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
*
1085043 GCTCAGCTTCAAGGGCACATC
65 GCTCAGCTCCAA-GGCACATC
* ** * * * *
1085064 ATTTACAATATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
* *
1085128 GTTCAGCTCCAAGGCACATT
65 GCTCAGCTCCAAGGCACATC
* ** * * *
1085148 ATTTGCAGCATAACTTAAGAT-GAGAAGGGTTATCTTCCAACTGAAGACATTCGAGTTTGATTAC
1 ATTTGCAGCATAACTTAAG-TCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1085212 GCTCAGCT
65 GCTCAGCT
1085220 TAGAGGAAAA
Statistics
Matches: 965, Mismatches: 164, Indels: 47
0.82 0.14 0.04
Matches are distributed among these distances:
78 40 0.04
79 23 0.02
80 99 0.10
81 35 0.04
83 47 0.05
84 534 0.55
85 187 0.19
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:1084651 original size:333 final size:331
Alignment explanation
Indices: 1083983--1085219 Score: 1542
Period size: 333 Copynumber: 3.7 Consensus size: 331
1083973 AATTTTTTCT
* *
1083983 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTCGAGTTCGATTACA
1 ATTTGAAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--C-AAAGACCCTCGAGTTCGATTACA
* * * *
1084048 CTCAGCATCGAGGGCACATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTT-CCAACAAA
62 CTCAGCATCCAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTTGCC-A-AAA
* * *
1084112 GACCTTCGAGTTCGACTAAGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
125 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
* * * * * *
1084177 GGGCTATCTGCCAACCAAAGACCTTCAAGTTCGACTACACTCACCTTCGAGGGTACATCATTTGC
190 GGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGC
*
1084242 AGCATAACTTAAGTCGAGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
254 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
1084307 TCCAAGGCACATC
319 TCCAAGGCACATC
* *
1084320 ATTTGAAGCATAGCTTAAGCCGAGAAGGGTTATCTGCCAAATACCCTCGAGTTCGATTACACTCA
1 ATTTGAAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
* * * *
1084385 GC-TCCAGGGTACATAATTTACAATATAACTCAAGGCTAGAAGTGTTATCTGTGGCCAAAAGACC
66 GCATCCAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCT-T-GCCAAAAGACC
* * * * * **
1084449 TTCGAGTTCGACTATGCTCAGCTCCAAGACATATCATTTGCAGTATAACTTAAGTCGATAAGGTT
129 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGC
* * *
1084514 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAACAT
194 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
* * * * * * *
1084579 AGCTTAAGTCGAGAAGGGCTATCTGACAACCAAAGACCTTTGAGTTCGATTACACTCAGCTTCGA
259 AACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCA
*
1084644 GGGCACATC
323 AGGCACATC
* * * * *
1084653 ATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTACCAGTAAAGA-CCT----TTCGATTACGC
1 ATTTGAAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC---AAAGACCCTCGAGTTCGATTACAC
* * * * *
1084713 TCAGC-TCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTAT-TTGCCAACAAAA
63 TCAGCATCCAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTTG-C--CAAAA
* *
1084776 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
125 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
* * *
1084841 GGGCTATCTGCCAACCAAGGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCA
190 GGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA
*
1084906 GCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCT
255 GCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
1084971 CCAAGGCACATC
320 CCAAGGCACATC
* * * * * *
1084983 ATTTGTAA-CATAGATTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTC
1 ATTTG-AAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
* * * *
1085047 AGCTTCAAGGGCACATCATTTACAATATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
65 AGCATCCAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCT-T-GCCAAAAGAC
* *
1085112 CTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATTATTTGCAGCATAACTTAAGAT-GAGAAGG
128 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG-TCGAGAAGG
* * ** * * *
1085176 GTTATCTTCCAACTGAAGACATTCGAGTTTGATTACGCTCAGCT
192 GCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
1085220 TAGAGGAAAA
Statistics
Matches: 772, Mismatches: 107, Indels: 46
0.83 0.12 0.05
Matches are distributed among these distances:
327 5 0.01
328 3 0.00
329 2 0.00
330 42 0.05
331 230 0.30
332 127 0.16
333 314 0.41
334 4 0.01
335 7 0.01
336 5 0.01
337 33 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (331 bp):
ATTTGAAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
GCATCCAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTTGCCAAAAGACCTT
CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTA
TCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAA
CTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
CACATC
Found at i:1085815 original size:4 final size:4
Alignment explanation
Indices: 1085808--1085858 Score: 93
Period size: 4 Copynumber: 12.5 Consensus size: 4
1085798 ATATATATAT
1085808 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC
1085857 AT
1 AT
1085859 TATATAGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 42 0.91
5 4 0.09
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:1085940 original size:39 final size:38
Alignment explanation
Indices: 1085857--1086107 Score: 253
Period size: 37 Copynumber: 6.5 Consensus size: 38
1085847 CATACAATAC
* *
1085857 ATTATATAG-TTTGAAAATATTTTT-AAAATATATATAT
1 ATTATATAGTTTTTAAAACATTTTTGAAAA-ATATATAT
* * * * *
1085894 ATAATATAGTTTTGAAAACATGTTTGAAAACATTTCTAT
1 ATTATATAGTTTTTAAAACATTTTTGAAAA-ATATATAT
*
1085933 ATTATATAGTTTTTAAAACATTTTTG-AAAATAAATAT
1 ATTATATAGTTTTTAAAACATTTTTGAAAAATATATAT
*
1085970 AATATATAGTTTTTAAAACATTTTTG-AAAATATATAT
1 ATTATATAGTTTTTAAAACATTTTTGAAAAATATATAT
* *
1086007 ATTGTATAGTTTTTAAAACATTTTTTAAAATATATATATAT
1 ATTATATAGTTTTTAAAACA-TTTTTGAAA-A-ATATATAT
*
1086048 ATATATTGTATAGTTTTTAAAACA-TTTTG-AAAATAAATAT
1 AT-TA---TATAGTTTTTAAAACATTTTTGAAAAATATATAT
*
1086088 AATATATAGTTTTTGAAAAC
1 ATTATATAGTTTTT-AAAAC
1086108 TTATATAATA
Statistics
Matches: 182, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
36 10 0.05
37 71 0.39
38 21 0.12
39 37 0.20
40 9 0.05
41 11 0.06
42 3 0.02
43 4 0.02
45 16 0.09
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (38 bp):
ATTATATAGTTTTTAAAACATTTTTGAAAAATATATAT
Found at i:1086058 original size:45 final size:44
Alignment explanation
Indices: 1085999--1086095 Score: 160
Period size: 45 Copynumber: 2.2 Consensus size: 44
1085989 ATTTTTGAAA
* *
1085999 ATATATATATTGTATAGTTTTTAAAACATTTTTTAAAATATATAT
1 ATATATATATTGTATAGTTTTTAAAACA-TTTTGAAAATAAATAT
1086044 ATATATATATTGTATAGTTTTTAAAACATTTTGAAAATAAATAT
1 ATATATATATTGTATAGTTTTTAAAACATTTTGAAAATAAATAT
1086088 A-ATATATA
1 ATATATATA
1086096 GTTTTTGAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
43 7 0.14
44 15 0.30
45 28 0.56
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (44 bp):
ATATATATATTGTATAGTTTTTAAAACATTTTGAAAATAAATAT
Found at i:1086101 original size:26 final size:27
Alignment explanation
Indices: 1086072--1086134 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
1086062 TTTTAAAACA
1086072 TTTTGAAAA-TAAATATAATATATAG-T
1 TTTTGAAAACT-AATATAATATATAGTT
*
1086098 TTTTGAAAACTTATATAATATATAGTT
1 TTTTGAAAACTAATATAATATATAGTT
1086125 TTTTGAAAAC
1 TTTTGAAAAC
1086135 ATTTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (27 bp):
TTTTGAAAACTAATATAATATATAGTT
Found at i:1086182 original size:31 final size:32
Alignment explanation
Indices: 1086116--1086200 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 32
1086106 ACTTATATAA
* *
1086116 TATATAGTTTTTTGAAAACATTTTTTTTTTGAAAAT
1 TATATAGTTTTTTAAAAACA----TTTTTTAAAAAT
1086152 TATATAG-TTTTTAAAAACATTTTTTAAAAAT
1 TATATAGTTTTTTAAAAACATTTTTTAAAAAT
1086183 TATATAGTTTTTTAAAAA
1 TATATAGTTTTTTAAAAA
1086201 AAAAAATTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
31 18 0.39
32 10 0.22
35 11 0.24
36 7 0.15
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (32 bp):
TATATAGTTTTTTAAAAACATTTTTTAAAAAT
Found at i:1086307 original size:22 final size:21
Alignment explanation
Indices: 1086282--1086355 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 21
1086272 TTTTTAAAAA
*
1086282 TATTTTATTTATTATTATTATT
1 TATTTTATTT-TTATTATTACT
*
1086304 TATTATTATCTTTATTATTACT
1 TATT-TTATTTTTATTATTACT
1086326 TATTTTTATTTTT-TT-TT-CT
1 TA-TTTTATTTTTATTATTACT
*
1086345 TTTTTTATTTT
1 TATTTTATTTT
1086356 GTTCCATGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.20
19 3 0.07
20 2 0.04
21 2 0.04
22 23 0.50
23 7 0.15
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (21 bp):
TATTTTATTTTTATTATTACT
Found at i:1086311 original size:16 final size:15
Alignment explanation
Indices: 1086282--1086336 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 15
1086272 TTTTTAAAAA
1086282 TATTTTATTTATTAT
1 TATTTTATTTATTAT
1086297 TA--TTATTTATTAT
1 TATTTTATTTATTAT
1086310 TATCTTTA-TTATTACT
1 TAT-TTTATTTATTA-T
1086326 TATTTTTATTT
1 TA-TTTTATTT
1086337 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 13 0.38
15 8 0.24
16 10 0.29
17 3 0.09
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTATTTATTAT
Found at i:1087489 original size:12 final size:12
Alignment explanation
Indices: 1087461--1087495 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
1087451 TGCTATTTTA
1087461 TTTTATTCCTTAT
1 TTTTATT-CTTAT
1087474 TTTTATTCTTAT
1 TTTTATTCTTAT
*
1087486 TTTTTTTCTT
1 TTTTATTCTT
1087496 TGTTAGCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTCTTAT
Found at i:1087611 original size:21 final size:19
Alignment explanation
Indices: 1087573--1087611 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
1087563 TTAGCTTTTT
*
1087573 CCTTTTTACTTGTTTTCAA
1 CCTTTTTACTTCTTTTCAA
1087592 CCTTTTTGACATTCTTTTCA
1 CCTTTTT-AC-TTCTTTTCA
1087612 CTTTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (19 bp):
CCTTTTTACTTCTTTTCAA
Found at i:1087833 original size:24 final size:23
Alignment explanation
Indices: 1087789--1087836 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
1087779 AATTTTAACA
*
1087789 TTTTTTTACTTTTTTTCTTCTTT
1 TTTTTTTACTTATTTTCTTCTTT
1087812 TTTTCTTTAACTTATTTT-TTCTTT
1 TTTT-TTT-ACTTATTTTCTTCTTT
1087836 T
1 T
1087837 GGTTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.18
24 10 0.45
25 8 0.36
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTTACTTATTTTCTTCTTT
Found at i:1088393 original size:80 final size:75
Alignment explanation
Indices: 1088300--1088454 Score: 204
Period size: 80 Copynumber: 2.0 Consensus size: 75
1088290 GAAAAAATAG
*
1088300 CATTTTAGGTAGCGTACAATATTAACATTCCCGGTAGAAAAAAATAATGTTTTAGGTAGCGCTTT
1 CATTTTAGGTAGCGCACAATATTAACATTCCCGGT----AAAAA-AATGTTTTAGGTAGCGCTTT
*
1088365 ATC-GAAAATGTTAAA
61 ACCAG-AAATGTTAAA
* * *
1088380 CATTTTAGGTAGCGCCCAATATTAACATTTCCGGTAAAAAAATGTTTTAGGTAGTGCTTTACCAG
1 CATTTTAGGTAGCGCACAATATTAACATTCCCGGTAAAAAAATGTTTTAGGTAGCGCTTTACCAG
1088445 AAATGTTAAA
66 AAATGTTAAA
1088455 AAATTATTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
75 31 0.45
76 6 0.09
80 32 0.46
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (75 bp):
CATTTTAGGTAGCGCACAATATTAACATTCCCGGTAAAAAAATGTTTTAGGTAGCGCTTTACCAG
AAATGTTAAA
Found at i:1091079 original size:5 final size:5
Alignment explanation
Indices: 1091071--1091096 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1091061 TTGGTTATGT
1091071 TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA T
1091097 TTATTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:1091104 original size:15 final size:15
Alignment explanation
Indices: 1091070--1091104 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1091060 ATTGGTTATG
1091070 TTATAATATAATATA
1 TTATAATATAATATA
* *
1091085 ATATAATATAATTTA
1 TTATAATATAATATA
1091100 TTATA
1 TTATA
1091105 TTATCTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATAATATAATATA
Found at i:1092814 original size:29 final size:29
Alignment explanation
Indices: 1092772--1092889 Score: 236
Period size: 29 Copynumber: 4.1 Consensus size: 29
1092762 CTACAGTGGT
1092772 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1092801 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1092830 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1092859 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1092888 CT
1 CT
1092890 GTGTGTATTA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.14, C:0.31, G:0.37, T:0.18
Consensus pattern (29 bp):
CTTGGAGGTCGCCATGGCATCCGGGCGAC
Found at i:1092934 original size:18 final size:18
Alignment explanation
Indices: 1092911--1092952 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1092901 AGAATAGGGC
1092911 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
1092929 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
*
1092947 CGTGCA
1 CATGCA
1092953 TGGGGGAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (18 bp):
CATGCAATCAACATGGGA
Found at i:1093026 original size:15 final size:15
Alignment explanation
Indices: 1092986--1093162 Score: 158
Period size: 15 Copynumber: 11.1 Consensus size: 15
1092976 AACATGGGAC
1092986 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* *
1093002 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
1093017 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
* *
1093032 GAGGG-ATCAACATGGG
1 GTGGGAAT--GCATGGG
1093048 ATGTGGGAATGCATGGGG
1 --GTGGGAATGCAT-GGG
* *
1093066 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
1093081 ACGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
1093098 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
* * *
1093113 GGGGGATGGTGCATTGGAC
1 GTGGGA--ATGCA-TGG-G
1093132 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
1093147 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
1093162 G
1 G
1093163 AGGGGATGGT
Statistics
Matches: 131, Mismatches: 18, Indels: 25
0.75 0.10 0.14
Matches are distributed among these distances:
14 2 0.02
15 59 0.45
16 29 0.22
17 24 0.18
18 10 0.08
19 7 0.05
ACGTcount: A:0.21, C:0.08, G:0.53, T:0.18
Consensus pattern (15 bp):
GTGGGAATGCATGGG
Found at i:1093045 original size:64 final size:65
Alignment explanation
Indices: 1092973--1093103 Score: 228
Period size: 64 Copynumber: 2.0 Consensus size: 65
1092963 GATGCATGCA
1092973 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGG-GTGGGAATGCATGGGGAGGG
1 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGGAGTGGGAATGCATGGGGAGGG
* *
1093037 ATCAACATGGGATGTGGGAATGCATGGGGGAGGGGATGCATGGGACGTGGGAATGCATGGGGTGG
1 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGGA-GTGGGAATGCATGGGGAGG
1093102 G
65 G
1093103 A
1 A
1093104 ATGCATGGGG
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 43 0.68
66 20 0.32
ACGTcount: A:0.24, C:0.09, G:0.50, T:0.17
Consensus pattern (65 bp):
ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGGAGTGGGAATGCATGGGGAGGG
Found at i:1093059 original size:33 final size:33
Alignment explanation
Indices: 1092977--1093098 Score: 171
Period size: 33 Copynumber: 3.8 Consensus size: 33
1092967 CATGCAATCA
1092977 ACATGGGACGTGGGAATGCATGGGGGAGGGGAT
1 ACATGGGACGTGGGAATGCATGGGGGAGGGGAT
*
1093010 GCATGGG--GTGGGAATGCAT-GGGGA-GGGAT
1 ACATGGGACGTGGGAATGCATGGGGGAGGGGAT
*
1093039 CAACATGGGATGTGGGAATGCATGGGGGAGGGGAT
1 --ACATGGGACGTGGGAATGCATGGGGGAGGGGAT
*
1093074 GCATGGGACGTGGGAATGCATGGGG
1 ACATGGGACGTGGGAATGCATGGGG
1093099 TGGGAATGCA
Statistics
Matches: 79, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
29 5 0.06
30 5 0.06
31 18 0.23
33 41 0.52
34 5 0.06
35 5 0.06
ACGTcount: A:0.23, C:0.09, G:0.52, T:0.16
Consensus pattern (33 bp):
ACATGGGACGTGGGAATGCATGGGGGAGGGGAT
Done.